CR1-L3A_Croc
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001326 |
|---|---|
| TE superfamily | CR1 |
| TE class | LINE |
| Species | Amniota |
| Length | 4288 |
| Kimura value | 35.65 |
| Tau index | 0.0000 |
| Description | CR1 (Chicken Repeat 1) retrotransposon, CR1-L3A_Croc subfamily |
| Comment | - |
| Sequence |
CTGTGACCCTTGGGTCTNTGATCAGCCCTGGTGTTTGAAGTCTCTGAGTAGTTAATCCCTCCCTGATTAGCGAGGGGGTGGAGCTGAGCAGCGAGGCTTAGTAGTAAAGTCAGTTGCCAGGCGAACTCNTGAGCAGCGGAAAACGAGAGCGTTTTGGAGGGAGTTTGGAGGGGAGTGTGNGAAGCTTTCTTTCTAGGTACAGTTCTACGCTCAATACCGTGATGGCCAGCGATGGANCAGTGGTTGTGACCTGCAACGGATGCGCCACGTTTTCTTTCCTGCCTGAAGCCAGAAGGGACTTCCTGTGTATGAAGTGCAAGTTGGTGGCTGTGCTGGAAGAAAAGATTCGTGGTTTGGAAGGACAAGTACTGACGCTGCGGAGCATCAGAGAGGCTGAGGAGTTCTTGGACAACCAGATTCGGGAAGCATCACCACCCCAGATTCAAGAAAGAAAGGAACTGGCCACCAAGGAACCAGAAAGAGAGGAAACCAGAGAGGAGGCTTGGCAGTTCGTAACCACCAGAGGCAAGAGGACGAGGCGGCATTCTACACGGCTGGAGGCAGANGAGGATGGGCAGGCTGTGACCACCAGAGAGAAGAGGACCAGGAGGAATTCCACACAGCTAGAAGTATCCAATCGTTACCAGGTTCTCAGCGTGGAAACTGCAGAAAATATCTCTGAAGATCCAGCTGGTCGAATGGAACGGAGAGCTGTACGGGACATACCTGTGGATGGCTGCTCAGCCCAACCCGCAAGACGATCAAGCGTGCCCACAAAGAGATCTCCAACCATCCAAGGAAGACAGACGATCCTTGTCGGGGATTCTATACTAAGAAGAATGGAAAGAACGTTCTGCAAGGGACAGGCGGACAACAGGACGGTGTGCTGTCTTCCCGGAGCCAAGACACGAGATGCGACTCTAAGACTGGATAGGCTTCTGAAGTCGGCGGGCAAGGATCCACTGGTGATGGTGCATATCGGCACTAATGACACTGCTTCGCGNGATACCTCACAGATTATAGACGACTTCAGGGAACTCGGAAGGGTGCTGAAGGAGAAGAATGTCCAAGTGATCTTCTCGGAGATCCTTCCTGTCCCACGAGCGAAGGAAGACAGAAGGCAGAAGATTCTGGAAGTGAACCGCTGGCTAGGTAAGTGGTGTAAGGTAGAGGGTTTTGGTTTTGTGGAACACTGGTCCACCTTCTATGGGGAGAAGGGGCTGTACAGTTTGGATGGCCTCCATCTCAGTAGAAGGGGAACCAGTCTTCTAGGGGACAGGCTGGCTAGACTAGTCAGGAGGGCGTTAAACTAACAACAAAAGGAGGGAGTGAAAGAGGGAAACAAATGAGCACTCATTTAGCACAAAATCAAGATGTCGAGAACAAAATTAATCAAGGCACCAAGGGACGTGAAGAGAAGAAATTCTTTAATTGCCTATACACCAATGCTAGGAGCCTGGGTAATAAACAAGAGGAATTGGAATTGCTCATTTATGAGCATAAATTCGACCTAGTTGGTATTACTGAAACCTGGTGGGAAGATTCGCATGACTGGAATGTTAAAATCAATGGTTATAACCTATTTAGGAAGGATCGAGTGGGCAAAAGGGGAGGGGGAGTGGCACTCTATGTCAAAAATGGCATTACCTGTTTCCGAGTCACTGACAACTCGGAAGCAAATGATCTTGAATGCTTATGGATCAATGTTCTAACAGATAAAGCACAAGATGGGGTACTAGTTGGTGTCTGCTACAGACCACCAAATCACACTAGAGAACAGGATGACCGGCTCCTTAAGCACCTATCTATAATGTGTAGGGGAAAAAGCTGCGTTATCACGGGGGACTTCAATCTGAGTGACATATGCTGGAGGTCTCATGCTGCCAGTACTAAAACGTCCTCGGAATTTCTAAAAATTATAGATGACAATTTCCTAACTCAAAAAGTGTTGCATCCAACACGGGGGAATTCTATATTAGACCTCATCTTGACAGATAAAGAGGAATTGATCACAGAACTAAAAATTAGTGGTTGCTTAGGTGCAAGTGATCATGACTTGATTACATTTGTTATGTGCAAACAGAATAAAGTCCAAACCAGTAATATATATACTTGGTGCTTTAAAAGGGCCAGTTTCACAAAGCTGAAAACAATTATGAGCCAAATCAGCTGGGAGAAAGAATTTAAACAGAAAAATGTGAATGATAATTGGGAACTGTTTAAGAACATTTTACTAGATGCCCAAAAAGCCACAATCCCACAATCGAGAAAGAAGGCTACGCTGGTTAAAAAACCAGCCTGGCTTAGAGGGGAAGTGAAAGCAGCTATAAAAAATAAAAAAGCAATATATAACAAATGGAAAAAAGGGGAAGTTGATAGCAATGAATATAAATTAGAAGCTAGGAATTGTAGAAAATTGATAAGGGAAGCAAAAGGACACAAGGAGAAATCTATGGCCAGCAGAGTTAAGGACAATAAGAAGGAGTTTTTNAAGTATATTAGGAACAAAAGGAATCCTAACAATGGTATTGGTCCATTACTAGATGGAAATGGTAGAATTGTCAATAATAATGCAGAAAAGGCAGAAGTGTTCAATAAATATTTCTGTTCTGTATTTGGGAAAAAGCCAGATGATGTANTCGTATCACATGATGATGATGAAATACTTTCCATTCCAACAGTAACTAAGGAGGATGTTAAACAGCAGCTACTAAAGTTAGACATTTTTAAATCAGCAGGTCCGGATAACTTGCATCCAAGAGTTTTAAAAGAGCTGGCCGAGGAGCTCTCTGGACCGTTAATGTTGATTTTCAATAAGTCTTGGAACACTGGGGAAGTTCCAGAGGACTGGAAGAAAGCTAATGTTGTGCCAATATTTAAAAAGGGTAAACGGGATGACCCGGGTAATTATAGGCCTGTCAGCCTGACATCGATCCCGGGCAAAATAATGGAACGGCTGATACGGGACTCGATTAATAAAGAATTAAAGGAGGGTAATATAATTAATGCCAATCAACATGGGTTTATGGAAAATAGATCTTGTCAAACTAACTTGATATCTTTTGATGAGATTACAAGTTTGGTTGATAAAGGTAATAGCGTTGATGTAATATACTTAGACTTCTGTAAGGCATTTGACTTGGTACCGCACGACATTTTGATTAAGAAACTAGAACGATACAAAATCAACATGGCACACATTAAATGGATTAAAAACTGGCTAACTGATAGGTCTCAAAATGTAATTGTAAATGGGGAATCATCATCGAGCGGGCGTGTTTCTAGTGGGGTCCCGCAGGGATCGGTTCTTGGCCCTACGCTATTTAACATTTTTATCAATGACCTGGAAGAAAACATAAAATCATTACTGATAAAGTTTGCAGATGACACAAAGATTGGGGGAGTGGTAAATAATGAAGAGGACAGGTCACTGATACAGAGCGATCTGGATCGCTTGGTAAGCTGGGCGCAAGCAAACAATATGCGTTTCAATACGGCCAAATGTAAAGTCATACATCTAGGAACAAAGAATGCAGGCCATACTTACAGGATGGGGGACTCTATCCTGGGAAGCAGCGACTCTGAAAAGGACTTGGGGGTCACGGTGGATAATCAGCTGAACATGAGCTCCCAGTGCGACGCTGTGGCCAAAAGGGCTAATGCGATCCTTGGATGTATAAACAGGGGAATNTCGAGTAGGAGTAGGGAGGTTATATTACCTCTGTATTTGGCACTGGTGCGACCGCTACTGGAATACTGTGTCCAGTTCTGGTGTCCACANTTCAAGAAGGATGTTGANAAATTGGAGAGGGTTCAGAGAAGAGCCACGAGAATGATTAAAGGACTGGAAAACATGCCTTATAGTGAGAGACTCAAGGAGCTCAATCTATTTAGCTTATCAAAGAGAAGGTTAAGGGGTGACTTGATCGCAGTCTATAAGTACCTACACGGGGAACAGAAATTTGATAATAGAGGGCTCTTCAGTCTAGCAGACAAAGGTATAACAAGATCCAATGGCTGGAAGTTGAAGCTAGACAAATTCAGACTAGAAATAAGGNGCAANTTTTTAACAGTGAGGGTAATTAACCACTGGAACAACTTACCAAGGGNTGTGGTGGATTCTCCATCACTGGAAATTTTTAAATCAAGATTGGATGTTTTTCTAAAAGATATGCTCTAGTTCAAACAGGAATTAATTCGGGGAAGTCCTATGGCCTGCGTTAGCAGGAGGTCGGACTAGATGATCTACAGNGGTCCCTTCCGGCCTTANAATCTATGAATCTATGAA
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TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| CR1-L3A_Croc | MAZ | 1609 | 1616 | - | 16.08 | CCCCTCCC |
| CR1-L3A_Croc | RVE8 | 670 | 678 | - | 16.08 | AGATATTTT |
| CR1-L3A_Croc | SP1 | 1608 | 1616 | + | 16.06 | GGGGAGGGG |
| CR1-L3A_Croc | HDG1 | 3000 | 3009 | + | 16.00 | TAATTAATGC |
| CR1-L3A_Croc | SOX21 | 2519 | 2533 | + | 15.96 | AACAATGGTATTGGT |
| CR1-L3A_Croc | SP3 | 1613 | 1623 | - | 15.88 | GCCACTCCCCC |
| CR1-L3A_Croc | LHY | 670 | 678 | - | 15.86 | AGATATTTT |
| CR1-L3A_Croc | SP4 | 1608 | 1616 | + | 15.85 | GGGGAGGGG |
| CR1-L3A_Croc | bHLH80 | 315 | 323 | + | 15.85 | TGCAAGTTG |
| CR1-L3A_Croc | ETV1 | 298 | 306 | - | 15.81 | ACAGGAAGT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
